BtaINT0121580 @ bosTau6
Intron Retention
Gene
ENSBTAG00000027809 | RABGAP1L
Description
Bos taurus RAB GTPase activating protein 1-like (RABGAP1L), mRNA. [Source:RefSeq mRNA;Acc:NM_001103263]
Coordinates
chr16:57036211-57039130:+
Coord C1 exon
chr16:57036211-57036418
Coord A exon
chr16:57036419-57037717
Coord C2 exon
chr16:57037718-57039130
Length
1299 bp
Sequences
Splice sites
5' ss Seq
ATGGTATGA
5' ss Score
6.56
3' ss Seq
TTGTTTTCCATTGTTTGCAGAGT
3' ss Score
9.03
Exon sequences
Seq C1 exon
AGGTGGGGAAGCAGATGGTAGAATCCTGGCATTTCATGTTGGCAACCATCATTTAACATGCCTCTGTGGATTCTGGATAATTGGCACTCAACAATTAAAAAAATGAACTTTGAAGAATTGGAGAACCTGCTTCTTGGAGAGGCAGAAACACTGCTGTGGAAAGAAATTGAAAGGCACCTGGTTGCAAGCATTTTTCATAACTGTGATG
Seq A exon
GTATGAAACTCTCTTTTTGGATTATAGCATCCACTTGTTTATGTGGGGGGTTATTTGTCATCTTGAGAGCTTTAACAGTGGGTAAGCAGTGGATAAAATAGTGGAGGGGATTCTCGGCCTATTTTGGGTATAGTATTAAATACTATATTTCTAGAGAGGGTCGGAGAAGGCAATGGCACCCCACTCCAGTACTTTTGCCTAGAAAATACCATGGACGGAGGAGCCTGGTAGGCTGCAGTCCATGGGGTCGCTAGAGTCGGACATGACTGAGCGACTTCACTTTCACTTTTCACTTTCATGCATTGGAGACGGAAATGGCAACTCACTCCAGTATTCTTGCCTGGAGAATCCCAGTGATGGGGAGCCTGGTGGGCTGCCGTCTATGGGGTCGCACAGAGTCGGACATGACTGAAGCGACTTAGCAGCAGCAGCAGCCGCAGCAGCGAGGGTATTTGGTACATGTAGATTGTGAGAAAGTGATGTTCATGTATTTAGTTTTTTTGAGTAAGTTTTTCAAAGTGTTACATTCTGGGACATTGGTGGTAAAATTGTTTGGAGGAAAAATACTTGACAGTCATTCAATTTTATTATGAGCGATCATTTCTAAATACATATAACCCAGTATAGACATAGGGCTTATGCCAGGCACTATGTTACTTACTTACTTGATACTCATAACATCTCCATAACAGAGATAGTATTTATTTAGACTAGCGATCTTACACTTCTCTTTGCCTGGAGCAGTCATAGATTATGCCTGTTGTCTAAGTATATTATTAAAGCCTCCATTTTATTCTCAAAAGTGTTCTGGTTTGGGTGATAAATTGGTTACCATTTCCGTATCCCAAGTCTAAGAGAATAGATAATAAAGCTGGTTTTCAGAGGAAGTATATGATTCTGAAGACCCACGTATTTTTCAGTAACAACTTTCCTGTTACTTTACATAAAAAGTAAATGTAGATTTTTACCTTTCAGTTATGCTTTATAAAGGGATATCTTGGTCATTCCAGCAACCTTTGGGTTTTACTCATGCCTTTTATAGAAGGTGTCTGATATCTTCCTCTCTCCTCTCAAAAAATAACGACTTGGCTTTTGTCGCATTTACTGGTTGTCTGATTATCTGGTTCCCAGAAGTTTCTTGTTCTATGGTGAAGGGACAACATTAGTTCTTAGTATATGGGCCCCTCTTAATGGGTACAGACAATTGGCAAAGATAGCTCTGGCACAGACGACAGATGTTCTTACTGCTTAAATATGTACCATGCACAATGTCGCTAATTTGTTTTCCATTGTTTGCAG
Seq C2 exon
AGTCCCTGGATGAGATTTGAAGAAGTTTGTCAGTTAAAAGCAAGAAGACAACTTCTAAACAGAAAGTTGCAGCATGGCTGCCACTACCATTTGTCACTGTGATATGCTCTTATTTCACCATAAAATTCCACAAGCAGCAGATACCAGCCGTGGTAGAGGGGAAGCCCAGTGTGGGTGATGGCTTTTTGGGACCTATGACATGAGGATTAGGGGTTCCCACAGGAGTGTTAGGATCTGTTTGATCTGTTACCCTGGGTATTCTTTCGAGAGACTCTGCTGGAGTGGATGTTAATTGTCTTTGGCAAAAGAGTTGGGGGATCCAGCCAGAAGTATCTTAATGCTGATGATCTTTGTACAGGGAACATTCTGGTGAAGAATTGCAGACAAAGCATAATATCAGAAAGCATAGTAAAAAAAAGCCATAGAGGCACTTATTCTTGTTGAATCTTTATGGATATATTATACAAAGCTATTTTTAAAGATACAGTTAAAAGTCTTAGTTGACTCTTTTAAGAATTTATTTCTACTAGTCAGTGTAACTGTTTCCTTCAAAACAGATTTTTCTGTTTGGATGTTATACTTACTATTACTAGCAGTTCTCAGTGTTGTATTTTAGAAGCAAGTTGTTATCATCTTCTGTTAAAGGCATTCAGCTGTATTTTATGATAAATACCAAGAATATCATTAAGAAGATCTTTATTCTTAATGCTCTGGTTTTTCTTGGGATTGCTGATATACCACTACATAAAAGAAACCATAATTCTTTGGGAAAATATTGTTTCTAAACATATATTTATTGAGACGGTATTTTAGCAAAATACCTTATTTTGGAAATTAATTTGGAAGTTGTTAGTGTTTTTCTCAAATAAGTTGATTTTTATTATTAAAAAATTTCTTGTTTGATAATGCCTTTTTTTGTTCCTTTTAGTAGTATATTTGAGCAAGTTTTAAAAAATTATAACACATACCTTTCTGGGTATTATTTTATAGGTATTTTATAGGATTTTTCTACATTTATTTTTTGGGTGAACGTTTTCTTGATACTTGTTTTTAAAAGAAGTGATTCTCTTTCACCATTTTTAGTGAAAAGGCCTTATTTTAGAAGAATTGGCTATGTTATTTAAGTAAATATTTTGTCTAATAGTATTTCTTGGACTGTTAACATGTACTACATATTTGAAAATTTGGAAACTACTGAAATACCAAAGAAAGGTTACTCAGAATTCCACCAGAATTAAGATTTTGGTGTATCTTCTTTCCACGTATCTACCTGTGCCCTTTTCCCCAACTCTTCAAAAACAACAGCTACCACACCAAGAGATACTTTTGTGTTTAACCAGTGCTTTCTATAGGTACTGCCTCCTGGGGAAAAATTGTACTGTATTATTTGTTAATAAACCTTTTGACATCTGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000027809:ENSBTAT00000019777:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=NA
Domain overlap (PFAM):
C1:
PF0064018=PID=PD(0.1=0.0)
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCACCTGGTTGCAAGCATTTT
R:
GGATCCCCCAACTCTTTTGCC
Band lengths:
356-1655
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development